Gene detail

Detailed information of BRAKERKREP00000001110.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047126279.1, cGMP-dependent 3',5'-cyclic phosphodiesterase-like isoform X3 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000001110

ATGGACAGCTTTTTAGGTAGACTTAAATCTAATCCAGCTAGTGAACCGGAGCCAGACAGCGtctcattttattgttttagtacgttgctGTTGAAGCCTCGCTCTTCTACACTTATACCTGCGCTTGAAAAGATTAGCTTAGACATGGCAAAGGCACATAGAAAAATCATGGGAGATATATCAAGTCAGCAGAAGTTTTTAATGCTAAATGATTTAGGTACATTATTTACAAAGAATCTTGCTGAGCTATCAAAGAGAATAATCAATAAgttgaCAAAAACATTGTTTGCAGAATCTGGAGTGGTGCTACTAGTTAACAAAGGCAACGATGAACTTTTTGCTCAAtcatttggaaataaaagttttattgatgaGGAATATAGAACtgagATATCAAAGAGTGGTTTCAACACATGGTGTGATCAACCAAattcactttcattttctcttattcctGAATCACTCATAGCTGaagaatttaacaaattaaaggCTTTTTTCAAGACAGaaattcacATCAGAAATATTTTGGTTGTACCTGGCTTCTCAGAAGAAGGAAATGAGCTAATTGCATTTTTCTgtcttttcaataaaattggCTCAACAGGGGGCTTCACTCTGTTAGATGAGGAGTTGGTATCAATGGTAGTGGAGAACTGCAAACATATTATCTGTAATGCATTAGATTGGAAAAACCAAACCCTTATTCAAAGACAGAATGAGaccTTACTTGATATATCTAAAAgactttttagtaatttagATGATGTGTCAGTGTTACTTCACAAAATTATGGAAGAAGCCCGTAATTTAACAAAAGCTGAAAGATGTTCATTGTTCTTGGTTGACCATGAAAATGCAGAGTTAGTTGCTAAAGTATTTGATGGAATTGAAAAAGAGaaagcTGAAGTAAGGATACCAATAAATCAAGGAATAGCAGGTCATGTGGCCTGTACAGGTGAAATGCTCAACATCAAAGATGCATATTCTCATCCACTTTTCTATCGAGATGTTGATGCAATGACtggatttaaaacaaaACACATACTTTGCTTTCCTATCCGTTCTGATCAAGaTCAAGTAATTGGTGTTGCACAACTCTGCAATAAGATCAATGGAAGCTCTTTCACTAAGTTTGATGAAGAAAGAACAACTGCTTTTGCTATTTTTGTTGGCCTTAGTTTAGTGCAGagtttgctttataaaaaagctacAGATGCACAACAGCGAAGCAAATTAGCCAATGAACTAATGCTGTATCATATGAGAgttcCTAATGAGGAAGtagaaaaatatgttaagCACTCATTGCCTGCAAAATGTGATGTGCACCCTAAAATGGATGAATTCACTTTCATGCCAAGAATTGAGCTTTCCCAACAGGATAGTGTTCaggtTGTTTTAGCCATGTTTGTTGATTTGGATTtaataagaaaactaaaaattcgTGACTCTACACTTGTGCGGTTTATTCTAACTGTGCGTCGGGCTTATCGAGATGTTGCCTACCACAATTGGACACATTCCTGGACTGTTGCacatttttcttatcttttacTTAAGTCTACAAAAGCAAGAGAATATTTAAGtGATTTGGAAGCATTTGTGTTACTGGCTGCATCACTGTGTCATGATATTGATCACAGAGGAACAAATAACTCTTTTCAAGTGTCTTCTcatTCGGTCCTTGCATCATTGTATAGCTCTGCAGGTTCTGTTCTAGAGAGACATCATTTTGCACAAGCCATGTGTATAATTCAAACAGAAAGTTGCAACATCTTTGAAACGTTTTGCCAAGATGATTACAGCAGGGCATTAGACTTAATGCAAGTGATGATCCTAGCCACTGATTTggcaaatcattttaaaatctcttcaCAGATTGATAAACTGATAAACActggtgttgataaaaaagacAAGAACCACATTGATTTGATGTTATCACTATTTATGACCACTGCTGACCTATCAGATCAAACAAAACCTTGGGAGAGTACTTTCTCTGTATCTGATCTTTTGTATGCAGAATTTTTCGCCCAAGGAGACCAAGAAAAGTCCTTAGGCTACACACCTATACAAATGATGGATCGTGAGAAAGCCAGTATTCCTGAACTACAATACGTTTTTCTCAGTAAAATTGCCCTACCTATTTATCAgaaGCTAAGTTCTTTGTTCCCGGAAACATCAAGCATTCTTTCGTGCATTAACGATAACATGAATCGATGGAAGGAAATGGAAAATGCGGAAAATGTTTAA

Transcript

BRAKERKRET00000001110

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P14099	cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Bos taurus OX=9913 GN=PDE2A PE=1 SV=2
Q922S4	cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Mus musculus OX=10090 GN=Pde2a PE=1 SV=4
Q01062	cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Rattus norvegicus OX=10116 GN=Pde2a PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002981 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01590 all species →	GAF	GAF domain	Domain	Interproscan
PF00233 all species →	PDEase_I	3'5'-cyclic nucleotide phosphodiesterase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003607 all species →	Domain	HD/PDEase domain	Interproscan
IPR023088 all species →	Family	3'5'-cyclic nucleotide phosphodiesterase	Interproscan
IPR003018 all species →	Domain	GAF domain	Interproscan
IPR029016 all species →	Homologous_superfamily	GAF-like domain superfamily	Interproscan
IPR002073 all species →	Domain	3'5'-cyclic nucleotide phosphodiesterase, catalytic domain	Interproscan
IPR023174 all species →	Conserved_site	3'5'-cyclic nucleotide phosphodiesterase, conserved site	Interproscan
IPR036971 all species →	Homologous_superfamily	3'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11347 all species →	CYCLIC NUCLEOTIDE PHOSPHODIESTERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008081 all species →	Molecular Function	phosphoric diester hydrolase activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004114 all species →	Molecular Function	3',5'-cyclic-nucleotide phosphodiesterase activity	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0004115 all species →	Molecular Function	3',5'-cyclic-AMP phosphodiesterase activity	Interproscan
GO:0004118 all species →	Molecular Function	3',5'-cGMP-stimulated cyclic-nucleotide phosphodiesterase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005741 all species →	Cellular Component	mitochondrial outer membrane	Interproscan
GO:0005743 all species →	Cellular Component	mitochondrial inner membrane	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0010628 all species →	Biological Process	positive regulation of gene expression	Interproscan
GO:0010754 all species →	Biological Process	negative regulation of cGMP-mediated signaling	Interproscan
GO:0010821 all species →	Biological Process	regulation of mitochondrion organization	Interproscan
GO:0019933 all species →	Biological Process	cAMP-mediated signaling	Interproscan
GO:0019934 all species →	Biological Process	cGMP-mediated signaling	Interproscan
GO:0042803 all species →	Molecular Function	protein homodimerization activity	Interproscan
GO:0043951 all species →	Biological Process	negative regulation of cAMP-mediated signaling	Interproscan
GO:0046069 all species →	Biological Process	cGMP catabolic process	Interproscan
GO:0047555 all species →	Molecular Function	3',5'-cyclic-GMP phosphodiesterase activity	Interproscan
GO:0048471 all species →	Cellular Component	perinuclear region of cytoplasm	Interproscan
GO:0097060 all species →	Cellular Component	synaptic membrane	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K18283	PDE2A; cGMP-dependent 3',5'-cyclic phosphodiesterase	EC:3.1.4.17	Morphine addiction	ko05032	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000001110.1 across 29 RNA-seq samples of Hydra viridissima. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

29Samples

10TPM > 0

7Conditions

46.9Max TPM

7.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	2	2.19	20.61
Whole	6	5	21.43	46.91
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	14.29	14.29
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	15.77	15.77
symbioic hydra M9 strain · symbioic hydra rep1	1	1	9.71	9.71
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
unannotated	1	0	0.00	0.00

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	20.61
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	18.86
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	46.91
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	21.77
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	20.43
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	20.25
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	19.20
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	14.29
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	15.77
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	9.71
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.